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As can be seen in Figure 3F, the synbody selectively precipitates AKT1 while precipitating relatively little AKT2 or AKT3, which suggests that the synbody makes unique contacts on AKT1 that are not present on either AKT2 or AKT3.
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LFn binds at the junction of adjacent PA63 subunits, with each subunit making unique contacts with the ligand.
These attachments suggest that the filament has intrinsic polarity with two ends making unique contacts with the C-tubule.
These observations suggest that further mutation of the residues of N-TIMP-3 which make unique contacts with these metalloproteinases may allow discrimination between them.
Here, specificity may be dictated by UBL insertions, between the βA and βB strands in MoaD and the βD and βE strands in ThiS, which make unique contacts to MoeB and ThiF, respectively (41, 42).
Structural data show that these compounds make unique contacts with several amino acids in the enzymes hydrophilic and hydrophobic binding pockets that can be exploited for design of isoform specific CAIs [ 127].
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The validated homology models of these GBA-Gαi interactions (Garcia-Marcos et al., 2009, 2011b) offer some clues into the origin of such specificity: despite docking onto the SwII/α3 hydrophobic cleft of Gαi, all GBA-motif containing proteins make additional and unique contacts with Gαi, which generate specificity for each GBA motif.
While bound, the lactam linker of the peptide makes a number of unique contacts outside the canonical PDZ binding motif, providing a novel target for PDZ-domain specificity as well as producing a 10-fold enhancement in binding affinity.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com